.command.log - Workdir - NFCORE_RNAFUSION:RNAFUSION:FUSIONINSPECTOR_WORKFLOW:ARRIBA_VISUALISATION (tih_rna_sample_00591_B23MVV7LT4_1)

File Info

Filename: .command.log
Full Path: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/29/9ff197a48e00c13fb411b04f1d1b69/.command.log
Size: 7.3 KB
Task: NFCORE_RNAFUSION:RNAFUSION:FUSIONINSPECTOR_WORKFLOW:ARRIBA_VISUALISATION (tih_rna_sample_00591_B23MVV7LT4_1)
Attempt
Content

  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/29/9ff197a48e00c13fb411b04f1d1b69/.command.sh
  Downloading: s3://natera-platform-sandbox/pipeline-resources/AIH/rna/GRCh38/arriba/cytobands_hg38_GRCh38_v2.4.0.tsv
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/98/004f22c33a723553dab60141646a1e/tih_rna_sample_00591_B23MVV7LT4_1.Aligned.sortedByCoord.out.bam.bai
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/c5/f6f773918406d6eb71e7a255bf3313/tih_rna_sample_00591_B23MVV7LT4_1.Aligned.sortedByCoord.out.bam
  Downloading: s3://natera-platform-sandbox/pipeline-resources/AIH/rna/GRCh38/starfusion/ctat_genome_lib_build_dir/ref_annot.gtf
  Downloading: s3://natera-platform-sandbox/pipeline-resources/AIH/rna/GRCh38/arriba/protein_domains_hg38_GRCh38_v2.4.0.gff3
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/29/9ff197a48e00c13fb411b04f1d1b69/.command.run
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/1a/7a3e18a36f32cb327c9fd793f69e17/tih_rna_sample_00591_B23MVV7LT4_1.FusionInspector.fusions.tsv
==> STAGING COMPLETE (8 inputs)

Loading annotation
Read 3041209 records
Warning in parseGtfAttribute("exon_number", exons) :
  Failed to parse 'exon_number' attribute of 8 record(s).
Loading protein domains
Read 134356 records
Drawing fusion #1: TVP23C:CDRT4
[W::hts_idx_load3] The index file is older than the data file: tih_rna_sample_00591_B23MVV7LT4_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: tih_rna_sample_00591_B23MVV7LT4_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: tih_rna_sample_00591_B23MVV7LT4_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: tih_rna_sample_00591_B23MVV7LT4_1.Aligned.sortedByCoord.out.bam.bai
Drawing fusion #2: TVP23C:CDRT4
[W::hts_idx_load3] The index file is older than the data file: tih_rna_sample_00591_B23MVV7LT4_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: tih_rna_sample_00591_B23MVV7LT4_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: tih_rna_sample_00591_B23MVV7LT4_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: tih_rna_sample_00591_B23MVV7LT4_1.Aligned.sortedByCoord.out.bam.bai
Drawing fusion #3: TVP23C:CDRT4
[W::hts_idx_load3] The index file is older than the data file: tih_rna_sample_00591_B23MVV7LT4_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: tih_rna_sample_00591_B23MVV7LT4_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: tih_rna_sample_00591_B23MVV7LT4_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: tih_rna_sample_00591_B23MVV7LT4_1.Aligned.sortedByCoord.out.bam.bai
Drawing fusion #4: TVP23C:CDRT4
[W::hts_idx_load3] The index file is older than the data file: tih_rna_sample_00591_B23MVV7LT4_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: tih_rna_sample_00591_B23MVV7LT4_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: tih_rna_sample_00591_B23MVV7LT4_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: tih_rna_sample_00591_B23MVV7LT4_1.Aligned.sortedByCoord.out.bam.bai
Drawing fusion #5: TVP23C:CDRT4
[W::hts_idx_load3] The index file is older than the data file: tih_rna_sample_00591_B23MVV7LT4_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: tih_rna_sample_00591_B23MVV7LT4_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: tih_rna_sample_00591_B23MVV7LT4_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: tih_rna_sample_00591_B23MVV7LT4_1.Aligned.sortedByCoord.out.bam.bai
Drawing fusion #6: TVP23C:CDRT4
[W::hts_idx_load3] The index file is older than the data file: tih_rna_sample_00591_B23MVV7LT4_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: tih_rna_sample_00591_B23MVV7LT4_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: tih_rna_sample_00591_B23MVV7LT4_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: tih_rna_sample_00591_B23MVV7LT4_1.Aligned.sortedByCoord.out.bam.bai
Drawing fusion #7: TVP23C:CDRT4
[W::hts_idx_load3] The index file is older than the data file: tih_rna_sample_00591_B23MVV7LT4_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: tih_rna_sample_00591_B23MVV7LT4_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: tih_rna_sample_00591_B23MVV7LT4_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: tih_rna_sample_00591_B23MVV7LT4_1.Aligned.sortedByCoord.out.bam.bai
Drawing fusion #8: TVP23C:CDRT4
[W::hts_idx_load3] The index file is older than the data file: tih_rna_sample_00591_B23MVV7LT4_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: tih_rna_sample_00591_B23MVV7LT4_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: tih_rna_sample_00591_B23MVV7LT4_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: tih_rna_sample_00591_B23MVV7LT4_1.Aligned.sortedByCoord.out.bam.bai
Drawing fusion #9: TVP23C:CDRT4
[W::hts_idx_load3] The index file is older than the data file: tih_rna_sample_00591_B23MVV7LT4_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: tih_rna_sample_00591_B23MVV7LT4_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: tih_rna_sample_00591_B23MVV7LT4_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: tih_rna_sample_00591_B23MVV7LT4_1.Aligned.sortedByCoord.out.bam.bai
Drawing fusion #10: TLK2P1:AC110079.1
[W::hts_idx_load3] The index file is older than the data file: tih_rna_sample_00591_B23MVV7LT4_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: tih_rna_sample_00591_B23MVV7LT4_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: tih_rna_sample_00591_B23MVV7LT4_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: tih_rna_sample_00591_B23MVV7LT4_1.Aligned.sortedByCoord.out.bam.bai
Drawing fusion #11: KRT8P48:KRT1
[W::hts_idx_load3] The index file is older than the data file: tih_rna_sample_00591_B23MVV7LT4_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: tih_rna_sample_00591_B23MVV7LT4_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: tih_rna_sample_00591_B23MVV7LT4_1.Aligned.sortedByCoord.out.bam.bai
[W::hts_idx_load3] The index file is older than the data file: tih_rna_sample_00591_B23MVV7LT4_1.Aligned.sortedByCoord.out.bam.bai
Done